What is the effect of a 5' overhang on gel mobility?

Susanne Rohrer "srohrer(removethis)" at immv.unizh.ch
Wed Jan 10 07:17:04 EST 2001



"WILLIS GAVIN (RM1) Norfolk and Norwich NHS Trust" wrote:

> I want to make a (blunt ended) PCR product that will migrate at the same
> speed as a restriction fragment with one blunt end and a 4 b.p. 5' overhang.
> Should the blunt PCR product be as long as the fragment including the length
> of the overhang, not including it or in between?

What are you trying to do with this?

Theoretically speaking, unless your fragment is only about 20bp, it would
probably not matter. But maybe I am missing your point.

Susanne






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